breseq  version 0.35.4  revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence position mutation freq annotation gene description
MC JC 257,908 Δ776 bp 100% insB9[crl] insB9, insA9, [crl]
RA 1,529,218 C→T 6.2% pseudogene (1329/2049 nt) rhsE → RhsE protein in rhs element
RA 1,647,187 T→C 5.7% D46G (GAT→GGT)  ydfW ← Qin prophage; uncharacterized protein YdfW
MC JC 1,978,503 Δ776 bp 100% insB‑5insA‑5 insB‑5, insA‑5
RA 2,173,361 Δ2 bp 100% pseudogene (917‑918/1358 nt) gatC ← galactitol‑specific PTS enzyme IIC component
RA 2,304,988 T→C 7.3% intergenic (+595/+120) eco → / ← mqo serine protease inhibitor ecotin/malate:quinone oxidoreductase
RA 2,305,013 A→G 8.2% intergenic (+620/+95) eco → / ← mqo serine protease inhibitor ecotin/malate:quinone oxidoreductase
RA 2,464,380 Δ1 bp 5.1% coding (628/756 nt) mlaA ← intermembrane phospholipid transport system ‑ outer membrane lipoprotein MlaA
RA 3,560,455:1 +G 100% pseudogene (151/758 nt) glpR ← DNA‑binding transcriptional repressor GlpR
RA 3,875,525 G→T 10.5% V30F (GTT→TTT)  yidX → putative lipoprotein YidX
RA 3,876,895 T→G 7.2% T20P (ACC→CCC)  yidA ← sugar phosphatase YidA
RA 4,184,809 G→T 74.1% G1189C (GGT→TGT)  rpoB → RNA polymerase subunit beta
RA 4,185,540 C→T 15.6% P64L (CCG→CTG)  rpoC → RNA polymerase subunit beta'
RA 4,296,060 C→T 10.5% intergenic (+266/+376) gltP → / ← yjcO glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
RA 4,296,190 A→G 14.9% intergenic (+396/+246) gltP → / ← yjcO glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
RA 4,296,191 A→C 14.1% intergenic (+397/+245) gltP → / ← yjcO glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
RA 4,296,268 T→C 15.8% intergenic (+474/+168) gltP → / ← yjcO glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
RA 4,296,286 C→T 10.4% intergenic (+492/+150) gltP → / ← yjcO glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
RA 4,296,380:1 +CG 100% intergenic (+586/+56) gltP → / ← yjcO glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
RA 4,326,088 T→G 5.4% intergenic (‑347/+311) yjdN ← / ← yjdM conserved protein YjdN/conserved protein YjdM

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 1207790 =74 (0.550)46 (0.370) 30/454 NT 39.8% coding (290/630 nt) ycfK e14 prophage; protein StfP
?NC_000913 1209619 = 70 (0.560)pseudogene (37/537 nt) stfE e14 prophage; putative side tail fiber protein fragment
* ? NC_000913 = 120780575 (0.560)50 (0.400) 39/454 NT 41.7% coding (305/630 nt) ycfK e14 prophage; protein StfP
?NC_000913 = 1209602 70 (0.560)pseudogene (54/537 nt) stfE e14 prophage; putative side tail fiber protein fragment
* ? NC_000913 = 12994980 (0.000)49 (0.370) 41/478 NT 100% intergenic (+253/‑33) ychE/insH21 putative inner membrane protein/IS5 transposase and trans‑activator
?NC_000913 1300698 = 0 (0.000)intergenic (+151/‑484) insH21/oppA IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein
* ? NC_000913 = 342706523 (0.170)6 (0.050) 6/468 NT 9.2% intergenic (‑32/+11) alaU/ileU tRNA‑Ala/tRNA‑Ile
?NC_000913 4037225 = 96 (0.740)intergenic (+8/‑35) ileT/alaT tRNA‑Ile/tRNA‑Ala